[ncl-talk] Plotting spatial map of SPI
Dawit Abebe
dawit.kan at gmail.com
Tue Apr 18 10:07:26 MDT 2017
>
> Dear All,
>
> I was trying to plot a spatial map of SPI but having a challenge indexing coordinates. I pasted my script as well as the point a stuck (red text) from NCL output below.
>
> Thank you so much for your support as usual.
>
> Dawit
>
> 1. My script
>
> ;=========================================================================================
> ;spi spatial map plot
> ;=========================================================================================
> load "$NCARG_ROOT/lib/ncarg/nclscripts/csm/gsn_code.ncl"
> load "$NCARG_ROOT/lib/ncarg/nclscripts/csm/gsn_csm.ncl"
> load "$NCARG_ROOT/lib/ncarg/nclscripts/csm/contributed.ncl"
>
> begin
>
> diri = "./"
> fili = "pre_cru_1901_2014.nc"
> f = addfile(diri+fili, "r")
>
> prc = f->pre
> prc at _FillValue = -999.0
> pmsg = prc at _FillValue
> printVarSummary(prc)
>
> dimp = dimsizes(prc)
> ntim = dimp(0)
> nlat = dimp(1)
> mlon = dimp(2)
>
> run = (/12/)
> nrun = dimsizes(run)
>
> spi = new((/nrun,ntim,nlat,mlon/), typeof(prc), pmsg)
>
> opt = True
>
> do nr=0,nrun-1
> spi(nr,:,:,:)= dim_spi_n(prc, run(nr), True, 0)
> end do
>
> copy_VarCoords(prc,spi(0,:,:,:))
> spi at long_name = "SPI"
> spi!0 = "run"
> spi&run = run
> printVarSummary(spi)
>
> ;========================================================================================
> ; Plot parameter
> ;========================================================================================
> dimp = dimsizes(prc)
> ntim = dimp(0)
> nlat = dimp(1)
> mlon = dimp(2)
>
> yyyymm = f->time
> yyyymm = yyyymm/100
>
> year = yyyymm/100
> yrStrt = 1901
> yrLast = 2014
> nyear = yrLast-yrStrt+1
> yyyymm = yyyymm_time(yrStrt, yrLast, "integer")
> yrfrac = (/ yyyymm_to_yyyyfrac(yyyymm, 0.0) /)
>
> prc&time = (/ yyyymm /)
>
> ;========================================================================================
>
> wks = gsn_open_wks ("ps","spi")
> gsn_define_colormap(wks,"BlueWhiteOrangeRed")
> gsn_reverse_colormap(wks) ; Reverse the color map.
>
> res = True
> res at gsnDraw = False ; don't draw
> res at gsnFrame = False ; don't advance frame
> res at gsnSpreadColors = True
>
> res at cnFillOn = True ; color Fill
> res at cnFillMode = "RasterFill" ; Raster Mode
> res at cnLinesOn = False ; Turn off contour lines
> res at cnLevelSelectionMode = "ManualLevels" ; set manual contour levels
> res at cnMinLevelValF = -3.0 ; set min contour level
> res at cnMaxLevelValF = 3.0 ; set max contour level
> res at cnLevelSpacingF = 0.5 ; set contour spacing
> res at lbLabelBarOn = False ; turn off individual cb's
>
> resP = True ; panel resources
> resP at txString = False
> resP at gsnPanelLabelBar= True ; add common colorbar
>
> plot = new ( 5, "graphic")
>
> do nl=0,nlat-1
> do ml=0,mlon-1
> do nr=0,nrun-1
> spi(nr,:,:,:)= dim_spi_n(prc, run(nr), True, 0)
> spi at long_name = "SPI"
> spi at units = "nrun="+run(nr)
> copy_VarCoords(prc,spi(0,:,:,:))
> spi!0 = "run"
> spi&run = run
> printVarSummary(spi)
>
> res at gsnCenterString = yyyymm({192112})
> plot(0) = gsn_csm_contour_map_ce(wks,spi({192112},:,:,:), res)
>
> res at gsnCenterString = yyyymm({192212})
> plot(1) = gsn_csm_contour_map_ce(wks,spi({192212},:,:,:), res)
>
> res at gsnCenterString = yyyymm({192712})
> plot(2) = gsn_csm_contour_map_ce(wks,spi({192712},:,:,:), res)
>
> res at gsnCenterString = yyyymm({197312})
> plot(3) = gsn_csm_contour_map_ce(wks,spi({197312},:,:,:), res)
>
> res at gsnCenterString = yyyymm({198412})
> plot(4) = gsn_csm_contour_map_ce(wks,spi({198412},:,:,:), res)
> end do
> end do
> end do
>
> gsn_panel(wks,plot,(/5,1/),resP) ; now draw as one plot
>
> end
>
> 2. NCL output from exciting the script above
>
> (my_ncl) Dagemawes-MacBook-Pro:~ dawitabebe$ ncl -Q spi12_plotmap_script.ncl
>
> Variable: prc
> Type: double
> Total Size: 393984 bytes
> 49248 values
> Number of Dimensions: 3
> Dimensions and sizes: [time | 1368] x [lat | 4] x [lon | 9]
> Coordinates:
> time: [ 380..41987]
> lat: [3.75..5.25]
> lon: [36.75..40.75]
> Number Of Attributes: 5
> correlation_decay_distance : 450
> long_name : precipitation
> units : mm/month
> missing_value : 9.96920996839e+36
> _FillValue : -999
>
> Variable: spi
> Type: double
> Total Size: 393984 bytes
> 49248 values
> Number of Dimensions: 4
> Dimensions and sizes: [run | 1] x [time | 1368] x [lat | 4] x [lon | 9]
> Coordinates:
> run: [12..12]
> time: [ 380..41987]
> lat: [3.75..5.25]
> lon: [36.75..40.75]
> Number Of Attributes: 2
> long_name : SPI
> _FillValue : -999
>
> Variable: spi
> Type: double
> Total Size: 393984 bytes
> 49248 values
> Number of Dimensions: 4
> Dimensions and sizes: [run | 1] x [time | 1368] x [lat | 4] x [lon | 9]
> Coordinates:
> run: [12..12]
> time: [190101..201412]
> lat: [3.75..5.25]
> lon: [36.75..40.75]
> Number Of Attributes: 4
> units : nrun=12
> long_name : SPI
> run : 12
> _FillValue : -999
> fatal:NclOneDValGetClosestIndex: finish coordinate index out of range, can't continue
> fatal:Could not obtain coordinate indexes, unable to perform subscript
> fatal:["Execute.c":8640]:Execute: Error occurred at or near line 98 in file spi12_plotmap_script.ncl
>
> (my_ncl) Dagemawes-MacBook-Pro:~ dawitabebe$
> ……………………………………...
>
>> On Apr 18, 2017, at 10:29 AM, ncl-talk-request at ucar.edu <mailto:ncl-talk-request at ucar.edu> wrote:
>>
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>> Today's Topics:
>>
>> 1. Re: Problem with gsn_add_text (Stavros Dafis)
>> 2. Problem with contour plot (Guilherme Martins)
>> 3. Re: Problem with gsn_add_text (Rick Brownrigg)
>> 4. Re: Problem with contour plot (Mary Haley)
>> 5. how to draw this kind of plot (wen)
>>
>>
>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Mon, 17 Apr 2017 21:48:31 +0300
>> From: Stavros Dafis <sdafis at cc.uoi.gr>
>> Subject: Re: [ncl-talk] Problem with gsn_add_text
>> To: Rick Brownrigg <brownrig at ucar.edu>
>> Cc: "ncl-talk at ucar.edu" <ncl-talk at ucar.edu>
>> Message-ID: <1492454911.58f50dffc9203 at webmail.uoi.gr>
>> Content-Type: text/plain; charset=ISO-8859-7
>>
>> Dear Rick, thank you for your suggestion, I have tried to assign both the
>> FillValue and the missing value (@missing_value) but nothing seems to work.
>>
>> I forgot to mention that I am using NCL 6.2.0, 6.3.0 and 6.4.0, on different
>> machines.
>>
>>
>> --
>> Stavros NTAFIS (DAFIS)
>> -----------------------------------------------
>> Physicist - Meteorologist, M.Sc.
>> Research Associate, National Observatory of Athens
>> (+33)9 81 94 22 12, Mobile: +30 697 04 20 242
>> ---------------
>> Weather charts:
>> http://www.meteo.gr
>> http://www.meteo.gr/meteomaps/
>>
>>
>> Quoting Rick Brownrigg <brownrig at ucar.edu>:
>>
>>> Hi Stavros,
>>>
>>> I don't know for certain, but I suspect you need to assign the _FillValue
>>> to the string array "points" that you constructed from "t2" (I don't see
>>> how the attributes from t2 would carry to points via the sprintf() ).
>>>
>>> Hope that helps...
>>> Rick
>>>
>>> On Sun, Apr 16, 2017 at 12:56 PM, Stavros Dafis <sdafis at cc.uoi.gr> wrote:
>>>
>>>> Hello everyone, I am facing a problem with the function gsn_add_text. In
>>>> the
>>>> description of the function, it is mentioned that no missing values will be
>>>> plotted:
>>>>
>>>> “This function attaches a list of text strings to the given plot.
>>>> The text
>>>> strings will be drawn only when the plot is drawn. If a missing value is
>>>> encountered in the text strings or x/y values, then no text string will be
>>>> drawn at this pair.”
>>>>
>>>> My script reads a netCDF file with 3 variables t2(lat,lon), lat(lat),
>>>> lon(lon),
>>>> so in order to attach values on the plot using this function, I have to
>>>> make
>>>> new 2-D variables for lat/lon and define the string to be plotted on the
>>>> map.
>>>> Values are assigned just fine on the plot, over the land, but missing
>>>> values
>>>> are also printed over the sea. I tried to use landsea masking but my data
>>>> have
>>>> high horizontal resolution (5km). Any suggestions?
>>>>
>>>> I have the same problem with WRF data, with already 2-D lat/lon arrays.
>>>>
>>>> This is the part of the code which prints the values:
>>>> .
>>>> .
>>>> .
>>>> contour = gsn_csm_contour_map(wks,t2,res)
>>>>
>>>> t2 at missing_value = -1
>>>> t2 at _FillValue = -1
>>>> (default missing values = -999)
>>>>
>>>> lat2 = new(dimsizes(t2),typeof(lat),-1)
>>>> lon2 = new(dimsizes(t2),typeof(lon),-1)
>>>>
>>>> nb = dimsizes(t2)
>>>>
>>>> do nl=0,nb(0)-1,1
>>>> do ml=0,nb(1)-1,1
>>>>
>>>> lat2(nl,ml) = lat(nl)
>>>> lon2(nl,ml) = lon(ml)
>>>>
>>>> end do
>>>> end do
>>>>
>>>> points = sprintf("%3.0f", t2)
>>>> ;points = ""+t2(:,:)+""
>>>>
>>>> values = gsn_add_text(wks,contour,points,lon2(:,:),lat2(:,:),True)
>>>>
>>>>
>>>>
>>>> --
>>>> Stavros NTAFIS (DAFIS)
>>>> -----------------------------------------------
>>>> Physicist - Meteorologist, M.Sc.
>>>> Research Associate, National Observatory of Athens
>>>> (+33)9 81 94 22 12, Mobile: +30 697 04 20 242
>>>> ---------------
>>>> Weather charts:
>>>> http://www.meteo.gr
>>>> http://www.meteo.gr/meteomaps/
>>>>
>>>>
>>>>
>>>> _______________________________________________
>>>> ncl-talk mailing list
>>>> ncl-talk at ucar.edu
>>>> List instructions, subscriber options, unsubscribe:
>>>> http://mailman.ucar.edu/mailman/listinfo/ncl-talk
>>>>
>>>
>>
>>
>> ------------------------------
>>
>> Message: 2
>> Date: Mon, 17 Apr 2017 19:00:02 +0000
>> From: Guilherme Martins <jgmsantos at gmail.com>
>> Subject: [ncl-talk] Problem with contour plot
>> To: NCL <ncl-talk at ucar.edu>
>> Message-ID:
>> <CAH+t_hMaRUDHM0wMkLC9cz2pFmMYGXgGC+X+bcxDLo=+8fgWQg at mail.gmail.com>
>> Content-Type: text/plain; charset="utf-8"
>>
>> Dear users,
>>
>> After searching extensively on the NCL website I was not able to find a
>> solution to my problem. I only want values within the contour of the
>> continent, but some edges appear in the figure that are stemming from the
>> mask that I applied and I do not know how to remove this. The figure is
>> attached for a better view of my problem.
>>
>> Best regards,
>>
>> Guilherme.
>> --
>> ------------------------------------------------------------------------------------------------
>> Instituto Nacional de Pesquisas Espaciais (INPE)
>> Centro de Previs?o de Tempo e Estudos Clim?ticos (CPTEC)
>> Divis?o de Sat?lites e Sistemas Ambientais (DSA)
>> Programa de Monitoramento de Queimadas
>> Telefone (INPE/CP): +55 12 3186-9205 || Celular (TIM): +55 12 98111-4292
>> E-mail: guilherme.martins at inpe.br || jgmsantos at gmail.com
>> Skype: guilherme.martins.
>> Homepage: https://sites.google.com/site/jgmsantos
>> Curr?culo Lattes: http://lattes.cnpq.br/5997657584785803
>> ------------------------------------------------------------------------------------------------
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>> ------------------------------
>>
>> Message: 3
>> Date: Mon, 17 Apr 2017 14:32:43 -0600
>> From: Rick Brownrigg <brownrig at ucar.edu>
>> Subject: Re: [ncl-talk] Problem with gsn_add_text
>> To: Stavros Dafis <sdafis at cc.uoi.gr>
>> Cc: "ncl-talk at ucar.edu" <ncl-talk at ucar.edu>
>> Message-ID:
>> <CAGKRhbHX1v-1sJ3G=QrXGA+0wSJ2KKsBB_7GqbCnp9krh9fkkQ at mail.gmail.com>
>> Content-Type: text/plain; charset="utf-8"
>>
>> Hi,
>>
>> You used -1 as _FillValue for variable "t2". Note it is an integer value --
>> what type is the array t2 -- float or int? In any case, you created the
>> formatted string array "points" from t2 as "%3.0f", so that any data values
>> in t2 that were -1 are now " -1", and thus it seems your _FillValue should
>> be " -1". Did you do this, and do the types between data and _FillValue
>> agree everywhere?
>>
>> If that's not the issue, I think we may need to see script and dataset to
>> figure out what the issue is.
>>
>> HTH...
>> Rick
>>
>> On Mon, Apr 17, 2017 at 12:48 PM, Stavros Dafis <sdafis at cc.uoi.gr> wrote:
>>
>>> Dear Rick, thank you for your suggestion, I have tried to assign both the
>>> FillValue and the missing value (@missing_value) but nothing seems to work.
>>>
>>> I forgot to mention that I am using NCL 6.2.0, 6.3.0 and 6.4.0, on
>>> different
>>> machines.
>>>
>>>
>>> --
>>> Stavros NTAFIS (DAFIS)
>>> -----------------------------------------------
>>> Physicist - Meteorologist, M.Sc.
>>> Research Associate, National Observatory of Athens
>>> (+33)9 81 94 22 12, Mobile: +30 697 04 20 242
>>> ---------------
>>> Weather charts:
>>> http://www.meteo.gr
>>> http://www.meteo.gr/meteomaps/
>>>
>>>
>>> Quoting Rick Brownrigg <brownrig at ucar.edu>:
>>>
>>>> Hi Stavros,
>>>>
>>>> I don't know for certain, but I suspect you need to assign the _FillValue
>>>> to the string array "points" that you constructed from "t2" (I don't see
>>>> how the attributes from t2 would carry to points via the sprintf() ).
>>>>
>>>> Hope that helps...
>>>> Rick
>>>>
>>>> On Sun, Apr 16, 2017 at 12:56 PM, Stavros Dafis <sdafis at cc.uoi.gr>
>>> wrote:
>>>>
>>>>> Hello everyone, I am facing a problem with the function gsn_add_text.
>>> In
>>>>> the
>>>>> description of the function, it is mentioned that no missing values
>>> will be
>>>>> plotted:
>>>>>
>>>>> “This function attaches a list of text strings to the given plot.
>>>>> The text
>>>>> strings will be drawn only when the plot is drawn. If a missing value
>>> is
>>>>> encountered in the text strings or x/y values, then no text string
>>> will be
>>>>> drawn at this pair.”
>>>>>
>>>>> My script reads a netCDF file with 3 variables t2(lat,lon), lat(lat),
>>>>> lon(lon),
>>>>> so in order to attach values on the plot using this function, I have to
>>>>> make
>>>>> new 2-D variables for lat/lon and define the string to be plotted on
>>> the
>>>>> map.
>>>>> Values are assigned just fine on the plot, over the land, but missing
>>>>> values
>>>>> are also printed over the sea. I tried to use landsea masking but my
>>> data
>>>>> have
>>>>> high horizontal resolution (5km). Any suggestions?
>>>>>
>>>>> I have the same problem with WRF data, with already 2-D lat/lon arrays.
>>>>>
>>>>> This is the part of the code which prints the values:
>>>>> .
>>>>> .
>>>>> .
>>>>> contour = gsn_csm_contour_map(wks,t2,res)
>>>>>
>>>>> t2 at missing_value = -1
>>>>> t2 at _FillValue = -1
>>>>> (default missing values = -999)
>>>>>
>>>>> lat2 = new(dimsizes(t2),typeof(lat),-1)
>>>>> lon2 = new(dimsizes(t2),typeof(lon),-1)
>>>>>
>>>>> nb = dimsizes(t2)
>>>>>
>>>>> do nl=0,nb(0)-1,1
>>>>> do ml=0,nb(1)-1,1
>>>>>
>>>>> lat2(nl,ml) = lat(nl)
>>>>> lon2(nl,ml) = lon(ml)
>>>>>
>>>>> end do
>>>>> end do
>>>>>
>>>>> points = sprintf("%3.0f", t2)
>>>>> ;points = ""+t2(:,:)+""
>>>>>
>>>>> values = gsn_add_text(wks,contour,points,lon2(:,:),lat2(:,:),True)
>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> Stavros NTAFIS (DAFIS)
>>>>> -----------------------------------------------
>>>>> Physicist - Meteorologist, M.Sc.
>>>>> Research Associate, National Observatory of Athens
>>>>> (+33)9 81 94 22 12, Mobile: +30 697 04 20 242
>>>>> ---------------
>>>>> Weather charts:
>>>>> http://www.meteo.gr
>>>>> http://www.meteo.gr/meteomaps/
>>>>>
>>>>>
>>>>>
>>>>> _______________________________________________
>>>>> ncl-talk mailing list
>>>>> ncl-talk at ucar.edu
>>>>> List instructions, subscriber options, unsubscribe:
>>>>> http://mailman.ucar.edu/mailman/listinfo/ncl-talk
>>>>>
>>>>
>>>
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>> ------------------------------
>>
>> Message: 4
>> Date: Mon, 17 Apr 2017 15:02:08 -0600
>> From: Mary Haley <haley at ucar.edu>
>> Subject: Re: [ncl-talk] Problem with contour plot
>> To: Guilherme Martins <jgmsantos at gmail.com>
>> Cc: NCL <ncl-talk at ucar.edu>
>> Message-ID:
>> <CACNN_CJz1yvpMXMABZ8FhSEov1T0qN63rzsNBBVXBhLos3UKjg at mail.gmail.com>
>> Content-Type: text/plain; charset="utf-8"
>>
>> Guilherme,
>>
>> Please see examples shapefiles_21.ncl at:
>>
>> http://www.ncl.ucar.edu/Applications/shapefiles.shtml#ex21
>>
>> It explains why you see these "blocky" contours in NCL.
>>
>> Simply put, if you have four points that represent a box at the edge of a
>> domain, and three of them have data one them and one is missing, then NCL
>> will only draw contours in half of the box, because it won't extrapolate to
>> that missing point.
>>
>> The real question is: do you simply want the graphics not to have gaps, or
>> do you actually want there to be data in locations that fall just outside
>> the geographical boundary? You can do things to force values just outside
>> the geographical boundary, but this depends on how you are masking in the
>> first place.
>>
>> If you are masking based on a shapefile, then see example shapefiles_18.ncl
>> on the same page:
>>
>> http://www.ncl.ucar.edu/Applications/shapefiles.shtml#ex18
>>
>> Note, however, that this mask is now returning values outside the range of
>> interest.
>>
>> If you are simply trying to mask your data *graphically* by some
>> geographical area, then instead of trying to use a mask function, you can
>> draw the full data, and then draw polygons filled in with white in the
>> areas you don't want to see graphically. That's what example 21 is showing.
>>
>> --Mary
>>
>>
>> On Mon, Apr 17, 2017 at 1:00 PM, Guilherme Martins <jgmsantos at gmail.com>
>> wrote:
>>
>>> Dear users,
>>>
>>> After searching extensively on the NCL website I was not able to find a
>>> solution to my problem. I only want values within the contour of the
>>> continent, but some edges appear in the figure that are stemming from the
>>> mask that I applied and I do not know how to remove this. The figure is
>>> attached for a better view of my problem.
>>>
>>> Best regards,
>>>
>>> Guilherme.
>>> --
>>> ------------------------------------------------------------
>>> ------------------------------------
>>> Instituto Nacional de Pesquisas Espaciais (INPE)
>>> Centro de Previs?o de Tempo e Estudos Clim?ticos (CPTEC)
>>> Divis?o de Sat?lites e Sistemas Ambientais (DSA)
>>> Programa de Monitoramento de Queimadas
>>> Telefone (INPE/CP): +55 12 3186-9205 <+55%2012%203186-9205> || Celular
>>> (TIM): +55 12 98111-4292 <+55%2012%2098111-4292>
>>> E-mail: guilherme.martins at inpe.br || jgmsantos at gmail.com
>>> Skype: guilherme.martins.
>>> Homepage: https://sites.google.com/site/jgmsantos
>>> Curr?culo Lattes: http://lattes.cnpq.br/5997657584785803
>>> ------------------------------------------------------------
>>> ------------------------------------
>>>
>>> _______________________________________________
>>> ncl-talk mailing list
>>> ncl-talk at ucar.edu
>>> List instructions, subscriber options, unsubscribe:
>>> http://mailman.ucar.edu/mailman/listinfo/ncl-talk
>>>
>>>
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>> ------------------------------
>>
>> Message: 5
>> Date: Tue, 18 Apr 2017 15:29:04 +0800 (CST)
>> From: wen <wenguanhuan at 163.com>
>> Subject: [ncl-talk] how to draw this kind of plot
>> To: ncl-list <ncl-talk at ucar.edu>
>> Message-ID: <5de3ed86.9f7f.15b7ff6fb6f.Coremail.wenguanhuan at 163.com>
>> Content-Type: text/plain; charset="gbk"
>>
>> Hi all,
>> I am trying to use TRMM 3B42 data to draw this kind of plot. I haven't found a example on the website to draw it. Do anyone know how to make it. Which function should I
>> use. Thank you!
>>
>>
>>
>>
>>
>>
>>
>>
>> --
>>
>> ??
>> ???
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>> ------------------------------
>>
>> _______________________________________________
>> ncl-talk mailing list
>> ncl-talk at ucar.edu
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>> End of ncl-talk Digest, Vol 161, Issue 23
>> *****************************************
>
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